This part is related to building on ARM. > @GraceZou, You will have to build from source for ARM. The repo is > gatk-bwamem-jni. There are instructions in the README on the repo landing > page. Set the environmental variable to then point to the built library.
On Sat, Feb 8, 2020 at 4:19 PM Jun Aruga <[email protected]> wrote: > > For GATK depending on GKL, I found an interesting page about building > GATK on ARM. > > https://gatkforums.broadinstitute.org/gatk/discussion/9971/gatk4-beta1-problem-some-questions-about-bwa-faga-pipeline-in-gatk4-beta1 > > We use GATK4-beta1 in ARM,and have several questions about it: > > Jun > > On Sat, Feb 8, 2020 at 2:53 PM Michael Crusoe <[email protected]> > wrote: > > > > https://github.com/Intel-HLS/GKL > > A Java wrapper around an Intel optimized implementations of PairHMM, > > Smith-Waterman, and DEFLATE. > > > > Uses SIMD intrinsics and assembly. > > > > At https://salsa.debian.org/misterc-guest/gkl/tree/experimental/simde is a > > fork using the SIMD Everywhere library, but I lack the expertise to produce > > source versions of the many assembler only routines. > > > > Any suggestions / contributions? > > > > -- > > Michael R. Crusoe > > > > -- > Jun | He - His - Him > [email protected] / IRC: jaruga -- Jun | He - His - Him [email protected] / IRC: jaruga
